-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_10201178-10447257

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for GlimmerHMM_glimmerT_36816-T1
Valid prediction for snap_scaffold_15-snap.2105-T1
Valid prediction for snap_scaffold_15-snap.2106-T1
Valid prediction for snap_scaffold_15-snap.2116-T1
Valid prediction for snap_scaffold_15-snap.2117-T1
Valid prediction for GlimmerHMM_glimmerT_36828-T1
Couldn't classify 164158, 164333
Sorry, prediction pasa_asmbl_15452.p1 fails validation.
(ATG)	 CA	163200-163446	GT	AGG
(GCA)	 AG	164158-164333	TG	GGT
-recovered pasa_asmbl_15452.p1, initial, 163200, 163446
Valid prediction for snap_scaffold_15-snap.2127-T1
Valid prediction for snap_scaffold_15-snap.2136-T1
Valid prediction for snap_scaffold_15-snap.2098-T1
Valid prediction for snap_scaffold_15-snap.2108-T1
Valid prediction for snap_scaffold_15-snap.2124-T1
Valid prediction for snap_scaffold_15-snap.2103-T1
Valid prediction for snap_scaffold_15-snap.2112-T1
Valid prediction for GlimmerHMM_glimmerT_36838-T1
Valid prediction for snap_scaffold_15-snap.2122-T1
Valid prediction for GlimmerHMM_glimmerT_36830-T1
Valid prediction for GlimmerHMM_glimmerT_36814-T1
Valid prediction for GlimmerHMM_glimmerT_36835-T1
Valid prediction for snap_scaffold_15-snap.2097-T1
Valid prediction for Augustus_model.g24537.t1
Valid prediction for GlimmerHMM_glimmerT_36818-T1
Valid prediction for HiQ_model.g24532.t1
Valid prediction for pasa_asmbl_15453.p1
Valid prediction for snap_scaffold_15-snap.2102-T1
Valid prediction for pasa_asmbl_15448.p1
Valid prediction for snap_scaffold_15-snap.2134-T1
Couldn't classify 151992, 152681
Sorry, prediction pasa_asmbl_15449.p1 fails validation.
(CCA)	 CG	151992-152681	TC	GGT
Valid prediction for snap_scaffold_15-snap.2139-T1
Valid prediction for snap_scaffold_15-snap.2096-T1
Valid prediction for Augustus_model.g24534.t1
Valid prediction for snap_scaffold_15-snap.2128-T1
Couldn't classify 153462, 153827
Sorry, prediction pasa_asmbl_15451.p1 fails validation.
(GAG)	 TG	153462-153827	GT	AGG
(GTG)	 AG	153921-154139	CC	AAC
-recovered pasa_asmbl_15451.p1, terminal, 153921, 154139
Valid prediction for snap_scaffold_15-snap.2137-T1
Valid prediction for snap_scaffold_15-snap.2132-T1
Valid prediction for GlimmerHMM_glimmerT_36833-T1
Valid prediction for snap_scaffold_15-snap.2099-T1
Valid prediction for Augustus_model.g24522.t1
Valid prediction for snap_scaffold_15-snap.2111-T1
Valid prediction for snap_scaffold_15-snap.2110-T1
Couldn't classify 152859, 153287
Sorry, prediction pasa_asmbl_15450.p1 fails validation.
(CAT)	 GG	152859-153287	AC	GTA
Valid prediction for snap_scaffold_15-snap.2138-T1
Valid prediction for snap_scaffold_15-snap.2107-T1
Valid prediction for GlimmerHMM_glimmerT_36823-T1
Valid prediction for Augustus_model.g24541.t1
Valid prediction for Augustus_model.g24539.t1
Valid prediction for snap_scaffold_15-snap.2114-T1

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for snap_scaffold_15-snap.2119-T1
Valid prediction for snap_scaffold_15-snap.2140-T1
Valid prediction for snap_scaffold_15-snap.2123-T1
Valid prediction for Augustus_model.g24538.t1
Valid prediction for snap_scaffold_15-snap.2129-T1
Valid prediction for GlimmerHMM_glimmerT_36815-T1
Valid prediction for Augustus_model.g24523.t1
Valid prediction for GlimmerHMM_glimmerT_36831-T1
Couldn't classify 16123, 16186
Sorry, prediction pasa_asmbl_14428.p1 fails validation.
(AGT)	 CC	16123-16186	GT	TGG
(CCG)	 AG	16810-16884	GT	CTG
(TGG)	 AG	19530-19731	GT	ACG
(TGG)	 AG	20141-20226	GT	ATG
(ACT)	 AG	22398-22555	GT	ACG
(GTA)	 AG	24361-24527	GT	AGG
(GTA)	 AG	25983-26094	GT	CGG
(ACT)	 AG	27994-28134	GT	GAG
-recovered pasa_asmbl_14428.p1, terminal, 27994, 28134
-recovered pasa_asmbl_14428.p1, internal, 16810, 16884
-recovered pasa_asmbl_14428.p1, internal, 19530, 19731
-recovered pasa_asmbl_14428.p1, internal, 20141, 20226
-recovered pasa_asmbl_14428.p1, internal, 22398, 22555
-recovered pasa_asmbl_14428.p1, internal, 24361, 24527
-recovered pasa_asmbl_14428.p1, internal, 25983, 26094
-recovered pasa_asmbl_14428.p1, internal, 27994, 28134
Valid prediction for GlimmerHMM_glimmerT_36824-T1
Valid prediction for snap_scaffold_15-snap.2100-T1
Valid prediction for Augustus_model.g24540.t1
Valid prediction for GlimmerHMM_glimmerT_36822-T1
Valid prediction for Augustus_model.g24533.t1
Valid prediction for Augustus_model.g24536.t1
Valid prediction for Augustus_model.g24526.t1
Valid prediction for Augustus_model.g24528.t1
Valid prediction for GlimmerHMM_glimmerT_36832-T1
Valid prediction for Augustus_model.g24530.t1
Valid prediction for GlimmerHMM_glimmerT_36819-T1
Valid prediction for snap_scaffold_15-snap.2135-T1
Valid prediction for GlimmerHMM_glimmerT_36825-T1
Valid prediction for GlimmerHMM_glimmerT_36821-T1
Valid prediction for snap_scaffold_15-snap.2109-T1
Valid prediction for snap_scaffold_15-snap.2104-T1
Valid prediction for Augustus_model.g24529.t1
Valid prediction for snap_scaffold_15-snap.2126-T1
Valid prediction for snap_scaffold_15-snap.2131-T1
Valid prediction for GlimmerHMM_glimmerT_36834-T1
Valid prediction for GlimmerHMM_glimmerT_36837-T1
Valid prediction for snap_scaffold_15-snap.2125-T1
Valid prediction for Augustus_model.g24531.t1
Valid prediction for Augustus_model.g24535.t1
Valid prediction for GlimmerHMM_glimmerT_36812-T1
Valid prediction for GlimmerHMM_glimmerT_36829-T1
Valid prediction for Augustus_model.g24524.t1
Valid prediction for GlimmerHMM_glimmerT_36813-T1
Valid prediction for snap_scaffold_15-snap.2095-T1
Valid prediction for snap_scaffold_15-snap.2130-T1
Valid prediction for snap_scaffold_15-snap.2115-T1
Valid prediction for GlimmerHMM_glimmerT_36836-T1
Valid prediction for Augustus_model.g24527.t1
Valid prediction for Augustus_model.g24525.t1
Valid prediction for GlimmerHMM_glimmerT_36827-T1
Valid prediction for snap_scaffold_15-snap.2121-T1
Valid prediction for GlimmerHMM_glimmerT_36820-T1
Valid prediction for snap_scaffold_15-snap.2118-T1
Valid prediction for Augustus_model.g24520.t1
Valid prediction for snap_scaffold_15-snap.2133-T1
Valid prediction for Augustus_model.g24521.t1
Valid prediction for snap_scaffold_15-snap.2120-T1
Valid prediction for GlimmerHMM_glimmerT_36817-T1
Valid prediction for snap_scaffold_15-snap.2101-T1
Valid prediction for GlimmerHMM_glimmerT_36826-T1
Valid prediction for snap_scaffold_15-snap.2113-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 29026, rend_intergenic: 5577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33933, rend_intergenic: 30068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42508, rend_intergenic: 35214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51283, rend_intergenic: 47241  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77548, rend_intergenic: 56568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80483, rend_intergenic: 77942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82056, rend_intergenic: 80757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105249, rend_intergenic: 84374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131369, rend_intergenic: 124061  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199242, rend_intergenic: 195210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 205445, rend_intergenic: 204272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 213973, rend_intergenic: 205584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231888, rend_intergenic: 214986  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 240330, rend_intergenic: 231922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 246080
-exon list size: 433


building trellis

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-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 29026, rend_intergenic: 5577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33933, rend_intergenic: 30068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42508, rend_intergenic: 35214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51283, rend_intergenic: 47241  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77548, rend_intergenic: 56568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80483, rend_intergenic: 77942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 82056, rend_intergenic: 80757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105249, rend_intergenic: 84374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131369, rend_intergenic: 124061  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199242, rend_intergenic: 195210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 205445, rend_intergenic: 204272  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 213973, rend_intergenic: 205584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 231888, rend_intergenic: 214986  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 240330, rend_intergenic: 231922  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support